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Sample GSM1606951 Query DataSets for GSM1606951
Status Public on May 19, 2015
Title AOCS_158_ICGC_DBDE_20130904_012
Sample type genomic
Source name Primarytumour
Organism Homo sapiens
Characteristics gender: Female
tissue: Primarytumour
cell type: high grade serous ovarian cancer
Treatment protocol NA
Growth protocol NA
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from fresh frozen tissues using AllPrep DNA/RNA Mini Kit (Qiagen). Genomic DNA (500ng) was bisulfite converted using EZ DNA methylation Kit (Zimo Research) following the manufacturer’s protocol with modification for Illumina Infinium Methyaltion arrays
Label cy3/cy5
Label protocol Bisulfite converted genomic DNAwas whole genome amplified and labeled using Illumina protocol
Hybridization protocol Samples were hybridized to Infinium Human Methylation 450K BeadChips (Illumina) according to the manufacturer’s protocol.
Scan protocol Arrays were scanned on Iscan (Illumina)
Description Raw data for arrays used for methylation analysis
Data processing Data was background corrected, normalized to internal controls and QC was performed at the probe and sample level. COMBAT was used to remove batch effects (Johnson et al., 2007)
Submission date Feb 10, 2015
Last update date Nov 09, 2022
Contact name Ann-Marie Patch
Organization name QIMR Berghofer Medical Research Institute
Street address 300 Herston Road
City Herston
State/province QLD
ZIP/Postal code 4006
Country Australia
Platform ID GPL13534
Series (2)
GSE65820 Whole genome characterisation of chemoresistant ovarian cancer [Illumina_450K_Methylation]
GSE65821 Whole genome characterisation of chemoresistant ovarian cancer
Reanalyzed by GSM6483131
Reanalyzed by GSE217673

Data table header descriptions
VALUE Average Beta

Data table
cg00000029 0.310354035
cg00000108 0.9346388
cg00000109 0.87911505
cg00000165 0.425169834
cg00000236 0.852583465
cg00000289 0.586025635
cg00000292 0.806591498
cg00000321 0.653401777
cg00000363 0.308212295
cg00000622 0.01555726
cg00000658 0.792542395
cg00000714 0.103493371
cg00000721 0.890974978
cg00000734 0.082536207
cg00000769 0.043549305
cg00000807 0.813815221
cg00000884 0.778323061
cg00000905 0.134905023
cg00000924 0.12016181
cg00000948 0.775292854

Total number of rows: 485005

Table truncated, full table size 10850 Kbytes.

Supplementary file Size Download File type/resource
GSM1606951_9445229094_R01C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1606951_9445229094_R01C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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